The university must deduct Federal Income and Social Security (OASI) taxes from employees' wages. SEU matches employees' contributions to the Social Security fund.

Deductions that affect salary and the amount employees are taxed will be taken out of each paycheck. These include: income tax, social security, salary advances, U.S. Savings Bonds, salary reductions for retirement, and flexible benefit plan (SEF Plan) spending accounts.

The university prohibits improper payroll deductions as defined in the Fair Labor Standards Act (FLSA). Any employee who considers that such a deduction has been made should bring it to the attention of the Director of Human Resources. If it is determined that an improper deduction has been made, the university will reimburse the employee.

Other deductions such as health insurance and charitable deductions are deducted only from the last paycheck of the month. Insurance deductions pay for the following month's coverage. An employee with a recurring less-than-12-month appointment who has elected to be paid over less than 12 months will have insurance deductions for the off months deducted from the last paycheck before the break.